[Bioperl-l] passing $result

[Andreas Kahari]

On Wed, Nov 12, 2003 at 08:50:57AM -0600, Joshua A Udall wrote:
> Bioperl -
> 
> I'm having trouble passing an object and I seem only able to pass part of 
> it, the first 'layer'.  I'm trying to pass $result (from blast parsing) 
> into a function and access the hits but they seem to have 
> disappeared.  What is the correct syntax to pass $result as a whole object?
> 
> while(my $result = $searchio->next_result() ) {
>     while (my $hit=$result->next_hit){
>           print_graph($result);
>     }
> }
> 
> sub print_graph {
>   my $result_sub = $_[0];
>   while( my $hit = $result_sub->next_hit ) {
> 
> ... and do groovy stuff here with the hits
> 
>   }
> }


Are you sure you want to call print_graph() inside the inner
loop, looping on next_hit(), and the loop over next_hit() within
print_graph() as well?


-- 
| )( |      Andreas Kähäri                                |<  >|
|(  )|      EMBL, European Bioinformatics Institute       | >< |
| )( |      Wellcome Trust Genome Campus, Hinxton         |<  >|
|(  )|      Cambridge, CB10 1SD                           | >< |
| )( |      United Kingdom                                |<  >|